Yilin Zhang, Mingxia Zhao, Jingsheng Tan, Minghan Huang, Xiao Chu, Yan Li, Xue Han, Taohong Fang, Yao Tian, Robert Jarret, Dongdong Lu, Yijun Chen, Lifang Xue, Xiaoni Li, Guochen Qin, Bosheng Li, Yudong Sun, Xing Wang Deng, Yun Deng, Xingping Zhang, Hang He
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引用次数: 0
摘要
为了破译葫芦科瓜属植物的遗传多样性,我们生成了 27 个不同基因型的端粒到端粒(T2T)组合,其中包括所有七个瓜属植物物种。这个 T2T 超级泛基因组扩展了之前发表的参考基因组 T2T-G42,增加了 399.2 Mb 和 11,225 个基因。比较分析揭示了基因变异和结构变异(SV),揭示了西瓜的进化和驯化过程,这些进化和驯化过程提高了西瓜的苦味和含糖量等特性,同时削弱了西瓜的抗病性。将 C. amarus 和 Citrullus mucospermus 的多抗病基因座成功引入栽培的 Citrullus lanatus。在 C. lanatus 中发现的 SVs 不仅遗传自 cordophanus,还遗传自 C. mucospermus,这表明在栽培西瓜的血统中,除了 cordophanus 还有其他祖先。我们的研究大大提高了对西瓜基因组多样性的理解,为所有西瓜物种提供了全面的参考基因组。这一进展有助于利用西瓜的野生近缘种对西瓜进行探索和遗传改良。
Telomere-to-telomere Citrullus super-pangenome provides direction for watermelon breeding
To decipher the genetic diversity within the cucurbit genus Citrullus, we generated telomere-to-telomere (T2T) assemblies of 27 distinct genotypes, encompassing all seven Citrullus species. This T2T super-pangenome has expanded the previously published reference genome, T2T-G42, by adding 399.2 Mb and 11,225 genes. Comparative analysis has unveiled gene variants and structural variations (SVs), shedding light on watermelon evolution and domestication processes that enhanced attributes such as bitterness and sugar content while compromising disease resistance. Multidisease-resistant loci from Citrullus amarus and Citrullus mucosospermus were successfully introduced into cultivated Citrullus lanatus. The SVs identified in C. lanatus have not only been inherited from cordophanus but also from C. mucosospermus, suggesting additional ancestors beyond cordophanus in the lineage of cultivated watermelon. Our investigation substantially improves the comprehension of watermelon genome diversity, furnishing comprehensive reference genomes for all Citrullus species. This advancement aids in the exploration and genetic enhancement of watermelon using its wild relatives. Citrullus super-pangenome constructed using 27 telomere-to-telomere assemblies encompassing all seven Citrullus species highlights genomic diversity across wild and cultivated watermelons and the potential for crop improvement.
期刊介绍:
Nature Genetics publishes the very highest quality research in genetics. It encompasses genetic and functional genomic studies on human and plant traits and on other model organisms. Current emphasis is on the genetic basis for common and complex diseases and on the functional mechanism, architecture and evolution of gene networks, studied by experimental perturbation.
Integrative genetic topics comprise, but are not limited to:
-Genes in the pathology of human disease
-Molecular analysis of simple and complex genetic traits
-Cancer genetics
-Agricultural genomics
-Developmental genetics
-Regulatory variation in gene expression
-Strategies and technologies for extracting function from genomic data
-Pharmacological genomics
-Genome evolution